Query gi|254780854|ref|YP_003065267.1| NADH dehydrogenase subunit C [Candidatus Liberibacter asiaticus str. psy62] Match_columns 202 No_of_seqs 224 out of 1237 Neff 5.9 Searched_HMMs 39220 Date Sun May 29 23:41:10 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780854.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PRK06074 NADH dehydrogenase su 100.0 0 0 510.6 17.5 188 2-199 1-189 (190) 2 KOG1713 consensus 100.0 0 0 454.6 4.4 187 3-189 2-189 (191) 3 PRK07785 NADH dehydrogenase su 100.0 0 0 417.2 14.1 156 6-162 67-227 (238) 4 COG0852 NuoC NADH:ubiquinone o 100.0 0 0 405.7 11.6 174 1-177 1-176 (176) 5 TIGR01961 NuoC_fam NADH (or F4 100.0 0 0 398.2 8.9 123 30-152 1-136 (136) 6 PRK08491 NADH dehydrogenase su 100.0 0 0 388.1 9.3 132 19-153 48-179 (263) 7 PRK11742 bifunctional NADH:ubi 100.0 0 0 344.4 11.2 143 9-152 2-153 (575) 8 PRK13292 trifunctional NADH de 100.0 0 0 310.7 10.6 147 7-153 219-371 (784) 9 CHL00012 ndhJ NADH dehydrogena 100.0 5.6E-45 0 295.3 11.5 126 28-157 25-155 (158) 10 PRK12494 NADH dehydrogenase su 100.0 1.8E-42 0 279.7 10.3 124 30-157 41-169 (172) 11 PRK07735 NADH dehydrogenase su 100.0 2.8E-41 1.4E-45 272.4 7.0 141 5-148 268-413 (420) 12 pfam00329 Complex1_30kDa Respi 100.0 6.9E-38 1.8E-42 251.8 8.3 102 41-146 1-103 (103) 13 COG3262 HycE Ni,Fe-hydrogenase 99.9 1.8E-27 4.6E-32 188.4 9.4 144 1-148 1-151 (165) 14 PRK02224 chromosome segregatio 42.9 30 0.00076 16.5 3.9 18 106-123 108-125 (880) 15 PRK06452 sdhA succinate dehydr 41.0 25 0.00064 17.0 2.6 18 53-70 150-167 (566) 16 TIGR00538 hemN oxygen-independ 40.8 32 0.00082 16.3 4.3 53 3-65 121-175 (462) 17 PRK05253 sulfate adenylyltrans 38.9 13 0.00032 18.8 0.8 111 35-156 111-258 (300) 18 pfam00828 Ribosomal_L18e Ribos 37.1 9.8 0.00025 19.4 0.1 34 138-175 24-59 (122) 19 TIGR02166 dmsA_ynfE anaerobic 36.2 14 0.00035 18.5 0.7 69 75-151 642-724 (849) 20 KOG1372 consensus 35.6 15 0.00039 18.3 0.8 20 113-133 198-220 (376) 21 pfam01305 consensus 32.9 14 0.00035 18.5 0.2 33 137-175 48-82 (102) 22 pfam10364 NKWYS Putative capsu 31.9 12 0.0003 19.0 -0.3 25 106-130 31-55 (141) 23 PRK12563 sulfate adenylyltrans 31.9 16 0.00041 18.1 0.5 113 38-159 125-273 (312) 24 COG1334 FlaG Uncharacterized f 30.7 47 0.0012 15.3 3.3 39 16-54 77-116 (120) 25 TIGR01472 gmd GDP-mannose 4,6- 28.7 26 0.00065 16.9 1.1 107 7-132 71-196 (365) 26 PRK05592 rplO 50S ribosomal pr 28.3 18 0.00046 17.8 0.2 38 136-180 47-86 (144) 27 pfam09860 DUF2087 Uncharacteri 26.3 3.3 8.5E-05 22.3 -3.8 35 105-139 24-58 (71) 28 TIGR02374 nitri_red_nirB nitri 23.5 11 0.00028 19.1 -1.6 31 117-147 615-646 (813) 29 pfam09234 DUF1963 Domain of un 23.2 64 0.0016 14.5 3.7 15 65-79 62-76 (221) 30 PRK04290 30S ribosomal protein 21.1 62 0.0016 14.5 1.8 20 137-156 56-75 (115) 31 pfam02485 Branch Core-2/I-Bran 20.6 72 0.0018 14.2 2.5 28 40-69 77-104 (242) 32 pfam06283 ThuA Trehalose utili 20.2 34 0.00087 16.1 0.3 106 42-152 22-134 (216) 33 COG2125 RPS6A Ribosomal protei 20.2 66 0.0017 14.4 1.8 19 138-156 58-76 (120) 34 KOG0105 consensus 20.0 43 0.0011 15.5 0.8 30 102-131 120-164 (241) No 1 >PRK06074 NADH dehydrogenase subunit C; Provisional Probab=100.00 E-value=0 Score=510.60 Aligned_cols=188 Identities=52% Similarity=0.990 Sum_probs=182.8 Q ss_pred CHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEEC Q ss_conf 05799999999986153114579847959999868989999999871878980147513256887777857999996615 Q gi|254780854|r 2 VRKIEDLGDYIVNSFSGSVRFAVNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLSP 81 (202) Q Consensus 2 ~~~L~~L~~~L~~~l~~~I~~~~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS~ 81 (202) +++|++|++.|+++||++|..+...+|+++|.|+++++.++|++||++++|+|++|+||||||||++++||+|||||+|+ T Consensus 1 ~e~l~eL~~~L~~~f~~~I~~~~~~~gelti~V~~~~l~evl~~LKdd~~~~Fd~L~DltaVDy~~~~~RFeVVYhL~S~ 80 (190) T PRK06074 1 SEKLEELIAYLEAKLPDAIVSVTVAFGELTLEVPAEKILEVLKFLRDDPELRFEQLIDLTGVDYPGREKRFEVVYHLLSV 80 (190) T ss_pred CHHHHHHHHHHHHHHCHHHHEEEEECCCEEEEECHHHHHHHHHHHHCCCCCCCCEEEEEEEECCCCCCCEEEEEEEEEEC T ss_conf 96699999999987241211278889927999819999999999855988998705245847268988879999998785 Q ss_pred CCCCEEEEEEEECCC-CEEECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECH Q ss_conf 752059982120578-5010122330255310112101138273567987677889989878711337789844788762 Q gi|254780854|r 82 KYNRRLRVKIAVAEG-KSVPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGFVELHYDD 160 (202) Q Consensus 82 ~~n~ri~Vk~~v~e~-~~vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~~evryd~ 160 (202) ++|+||+||+.++++ +.||||++|||||||+|||+||||||.|+|||||||||+|++|+||||||||||+||+|||||+ T Consensus 81 ~~~~ri~vk~~~~~~~p~ipSit~iw~~AnW~ERE~yDmfGI~F~gHPdLrRill~~~~~GhPLRKDyPl~g~~~~~y~~ 160 (190) T PRK06074 81 KHNQRLRVKVRAPEDFPVVPSVVDIWPSANWYEREAYDLYGIVFEGHPDLRRILTDYGFEGHPLRKDFPLTGYVEVRYDE 160 (190) T ss_pred CCCCEEEEEECCCCCCCCCCCCHHEEECCCEEEEEHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECH T ss_conf 68988999953677899798432123179745555245409423799986131589898778716774688731451074 Q ss_pred HHCEEECCCCEEEEHHHCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 115131266422022212766563234533457533210 Q gi|254780854|r 161 KVKKVVYRPVELMQEHRDYDFLSPWEGVNSLFAKEDSKD 199 (202) Q Consensus 161 ~~k~v~~epv~l~q~~r~f~~~spwe~~~~~~~~~~~~~ 199 (202) ++|||+|+||+| |||+|..+++++|+|+. T Consensus 161 ~~~~v~~~~~~~----------~~~~~~~~v~~~~~~~~ 189 (190) T PRK06074 161 ELKRVVYEPVTL----------SPWEGTPYVLPGDEKAG 189 (190) T ss_pred HHCEEEECCCCC----------CCCCCCCCCCCCCCCCC T ss_conf 347585126645----------73258884676866678 No 2 >KOG1713 consensus Probab=100.00 E-value=0 Score=454.64 Aligned_cols=187 Identities=45% Similarity=0.861 Sum_probs=178.2 Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEE-CCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEEC Q ss_conf 579999999998615311457984-7959999868989999999871878980147513256887777857999996615 Q gi|254780854|r 3 RKIEDLGDYIVNSFSGSVRFAVNS-VGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLSP 81 (202) Q Consensus 3 ~~L~~L~~~L~~~l~~~I~~~~~~-~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS~ 81 (202) .++..++++..+.+++.++..... .+++.+.+.++.++.|+.|||++..++|..++||||||-|.+++||+|||+|+|. T Consensus 2 ~q~~~fg~ya~e~Lpk~~~k~~~~~~~~lei~~~~~~~i~vl~flk~h~y~r~q~~~Diagvdvp~rk~rfevvynl~sv 81 (191) T KOG1713 2 MQLTLFGKYAAECLPKRVQKVQYQAGDELEILIHPDGVIPVLLFLKGHTYARFQNLYDIAGVDVPTRKNRFEVVYNLLSV 81 (191) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEEEEEEECCCCEEEEEEEEECCCCCCCCCCEEEEEEEECCC T ss_conf 40558899998751388776443035420430477864677766616450146676764377865634436775300101 Q ss_pred CCCCEEEEEEEECCCCEEECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECHH Q ss_conf 75205998212057850101223302553101121011382735679876778899898787113377898447887621 Q gi|254780854|r 82 KYNRRLRVKIAVAEGKSVPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGFVELHYDDK 161 (202) Q Consensus 82 ~~n~ri~Vk~~v~e~~~vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~~evryd~~ 161 (202) ..|.||||||+++|.+||+|++++|+||||+|||+||||||.|.|||||||||||||||||||||||||+||+|||||++ T Consensus 82 r~nsrirVkt~tde~tpI~sv~~vfksad~~EREv~DM~GV~f~nHPdLrRIltdygfeGhPlRKDyplsgy~Evryd~~ 161 (191) T KOG1713 82 RYNSRIRVKTYTDESTPIDSVVSVFKSADWQEREVWDMFGVTFDNHPDLRRILTDYGFEGHPLRKDYPLSGYVEVRYDDE 161 (191) T ss_pred CCCCEEEEEEECCCCCCCCCCEEEEECCCHHHHHHHHHHCEECCCCCCHHHHCCCCCCCCCCCCCCCCCCCCEEEECCCH T ss_conf 23546899983156766775057541587478778766423104786532204666645785224677888268750652 Q ss_pred HCEEECCCCEEEEHHHCCCCCCCCCCCC Q ss_conf 1513126642202221276656323453 Q gi|254780854|r 162 VKKVVYRPVELMQEHRDYDFLSPWEGVN 189 (202) Q Consensus 162 ~k~v~~epv~l~q~~r~f~~~spwe~~~ 189 (202) +||||+||++|+||||.||+.||||... T Consensus 162 ~krvv~ep~elaqefr~fd~~spwe~~~ 189 (191) T KOG1713 162 EKRVVSEPIELAQEFRKFDLNSPWEQFP 189 (191) T ss_pred HCEEECCHHHHHHHHHHCCCCCCHHHCC T ss_conf 3023327689999876453589356467 No 3 >PRK07785 NADH dehydrogenase subunit C; Provisional Probab=100.00 E-value=0 Score=417.21 Aligned_cols=156 Identities=35% Similarity=0.695 Sum_probs=144.8 Q ss_pred HHHHHHHHH---HCCCCEEEEEEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCC-CCEEEEEEEEEC Q ss_conf 999999998---6153114579847959999868989999999871878980147513256887777-857999996615 Q gi|254780854|r 6 EDLGDYIVN---SFSGSVRFAVNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRS-NRFDVVYHFLSP 81 (202) Q Consensus 6 ~~L~~~L~~---~l~~~I~~~~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~-~RFeVvY~LlS~ 81 (202) ++|...+.+ .++++|+++.+.+||+++.|.+++|.+|+++||||++|+|++|+||||||||++. .||+|||||+|+ T Consensus 67 d~L~~a~~~~~~~~~~aie~vvVdrgELTl~V~re~l~~V~~~LRDdp~lrFe~l~dvtGVDYP~~~~rrf~vVYhLlS~ 146 (238) T PRK07785 67 DRLAEALEEEGVEFGDAIEKVVVDRGELTLHVRRERLPEVAQTLRDDPALRFELCLGVSGVHYPDDTGRELHAVYPLTSI 146 (238) T ss_pred HHHHHHHHHCCCCHHHHEEEEEEECCEEEEEECHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCC T ss_conf 99999987705565442137888688389998789999999987079655562021544545687567643699982378 Q ss_pred CCCCEEEEEEEECCCCE-EECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECH Q ss_conf 75205998212057850-10122330255310112101138273567987677889989878711337789844788762 Q gi|254780854|r 82 KYNRRLRVKIAVAEGKS-VPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGFVELHYDD 160 (202) Q Consensus 82 ~~n~ri~Vk~~v~e~~~-vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~~evryd~ 160 (202) ++|.|||||+.+++..+ ||||++|||+|||+|||+||||||.|+||||||||||||+|+||||||||||+| ++|+|.. T Consensus 147 ~~N~RiRlkv~v~e~dP~vpSv~~v~~~AnW~ERE~~DmfGI~F~GHPdLrRIlmp~d~~GHPlRKD~PL~G-ipVeYkg 225 (238) T PRK07785 147 THNRRIRLEVAAPDSDPHIPSLVSVYPTNDWHERETYDFFGIIFDGHPALTRIEMPDDWQGHPQRKDYPLGG-IPVEYKG 225 (238) T ss_pred CCCCEEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC-CEEEECC T ss_conf 779889999975888985885323356887467645400052247999861036899998775356767887-2574168 Q ss_pred HH Q ss_conf 11 Q gi|254780854|r 161 KV 162 (202) Q Consensus 161 ~~ 162 (202) .+ T Consensus 226 a~ 227 (238) T PRK07785 226 AQ 227 (238) T ss_pred CC T ss_conf 86 No 4 >COG0852 NuoC NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion] Probab=100.00 E-value=0 Score=405.65 Aligned_cols=174 Identities=48% Similarity=0.879 Sum_probs=162.4 Q ss_pred CCHH-HHHHHHHHHHHCCCCEEEEEEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEE Q ss_conf 9057-999999999861531145798479599998689899999998718789801475132568877778579999966 Q gi|254780854|r 1 MVRK-IEDLGDYIVNSFSGSVRFAVNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFL 79 (202) Q Consensus 1 M~~~-L~~L~~~L~~~l~~~I~~~~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~Ll 79 (202) |... +.++.+.+.+.++..+.......+++++.+.+..+.++|++||++. |.+|+|+||||||++.+||+|||||+ T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~l~~Lk~~~---f~~l~d~~gvD~~~~~~~FevvYhL~ 77 (176) T COG0852 1 PDDPVLAELLERLLAELSTVIETVVVAEGELTLKVPPDELIDVLKALKDEG---FDHLLDLTGVDYPQETERFEVVYHLL 77 (176) T ss_pred CCCHHHHHHHHHHHHHHHHEEEEEEEEEEEEEEECCHHHHHHHHHHHHHHH---HHHHHHHHCCCCCCCCCCEEEEEEEE T ss_conf 961356787776666320004210010016787347889999999974420---78898764565425688579999964 Q ss_pred ECCCCCEEEEEEEECCCCE-EECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEE Q ss_conf 1575205998212057850-101223302553101121011382735679876778899898787113377898447887 Q gi|254780854|r 80 SPKYNRRLRVKIAVAEGKS-VPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGFVELHY 158 (202) Q Consensus 80 S~~~n~ri~Vk~~v~e~~~-vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~~evry 158 (202) |++.|.||+|||.++++.+ |||+++|||+|||+|||+||||||.|+|||||||||||+||+||||||||||+||++++| T Consensus 78 s~~~~~~v~vkv~~~~~~~~vpSv~~I~~~A~W~ERE~yDmfGI~FeGHP~LrRilm~~~~~GhPLRKDfpl~~~~~~~~ 157 (176) T COG0852 78 SYKDNRRVRVKVRLSEDDPHVPSVTDIWPAANWYEREAYDMFGIVFEGHPDLRRILMPDDWEGHPLRKDFPLRGYVEVRY 157 (176) T ss_pred ECCCCCEEEEEEECCCCCCCCCCHHHHCCCCCHHHHHHHEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECC T ss_conf 06889789999886898886871577313576266633223125875996621435788878997567768886388341 Q ss_pred CHHHCEEECCCCEEEEHHH Q ss_conf 6211513126642202221 Q gi|254780854|r 159 DDKVKKVVYRPVELMQEHR 177 (202) Q Consensus 159 d~~~k~v~~epv~l~q~~r 177 (202) |+++|+++|+|+.+.|++| T Consensus 158 ~~~~~~~~~~~~~~~~~~~ 176 (176) T COG0852 158 DEEDKKVVYEPVELIFERR 176 (176) T ss_pred CHHHCCCCCCCCCCCCCCC T ss_conf 2120534456400156689 No 5 >TIGR01961 NuoC_fam NADH (or F420H2) dehydrogenase, subunit C; InterPro: IPR010218 This entry describes the C subunit of the NADH dehydrogenase complex I in bacteria, as well as many instances of the corresponding mitochondrial subunit (NADH dehydrogenase subunit 9) and of the F420H2 dehydrogenase in Methanosarcina. Complex I contains subunits designated A-N. This C subunit often occurs as a fusion protein with the D subunit. This entry excludes the NAD(P)H and plastoquinone-dependent form of chloroplasts and Synechocystis.; GO: 0016651 oxidoreductase activity acting on NADH or NADPH, 0006118 electron transport. Probab=100.00 E-value=0 Score=398.18 Aligned_cols=123 Identities=50% Similarity=0.987 Sum_probs=118.0 Q ss_pred EEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCC-CCC-----CCCCEEEEEEEEECCCCC----EEEEEEEECCCCE- Q ss_conf 99998689899999998718789801475132568-877-----778579999966157520----5998212057850- Q gi|254780854|r 30 LSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVD-FLS-----RSNRFDVVYHFLSPKYNR----RLRVKIAVAEGKS- 98 (202) Q Consensus 30 l~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVD-yp~-----~~~RFeVvY~LlS~~~n~----ri~Vk~~v~e~~~- 98 (202) ++|.+.++.+.++|++||+|+.|+|++|+|+|||| ||+ +++||||||||+|+++|+ ||+|||.++++++ T Consensus 1 ~~v~~~~~~~~~v~~~Lk~d~~l~F~~L~d~~GVD~yp~~~~~l~~~~fevvY~L~S~~~~~~~~~~~~~Kv~~~~~d~~ 80 (136) T TIGR01961 1 LVVEIKKEQLLEVLTFLKDDPALGFELLSDVSGVDEYPKKERELREKRFEVVYHLLSIKHNQKRKSRIRIKVRLSEDDPN 80 (136) T ss_pred CEEEECHHHHHHHHHHCCCCCCCCEEEEEEEEEECCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCEEEEEEEECCCCCC T ss_conf 91563465689998740022216801566655310012578888876630566652363411147258999873789898 Q ss_pred -EECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCC-CCCCCCCCCCC Q ss_conf -1012233025531011210113827356798767788998987-87113377898 Q gi|254780854|r 99 -VPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEG-HPLRKDFPVTG 152 (202) Q Consensus 99 -vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feG-hPLRKDFPltG 152 (202) |||+++||+||||+|||+||||||.|+||||||||||||||+| |||||||||+| T Consensus 81 ~vPS~~~~~~~AnW~ERE~YDmyGI~F~gHPdLrRil~P~df~G~hPLRKDyPl~g 136 (136) T TIGR01961 81 HVPSVTSVFKTANWYERETYDMYGIVFDGHPDLRRILMPDDFEGVHPLRKDYPLTG 136 (136) T ss_pred CCCEEEECCCCCCCCCCEEEEEECCEECCCCCCCEEECCCCCEECCCCCCCCCCCC T ss_conf 68701421467872220345431325737899753226888883257755677889 No 6 >PRK08491 NADH dehydrogenase subunit C; Provisional Probab=100.00 E-value=0 Score=388.06 Aligned_cols=132 Identities=30% Similarity=0.582 Sum_probs=127.8 Q ss_pred CEEEEEEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEECCCCCEEEEEEEECCCCE Q ss_conf 11457984795999986898999999987187898014751325688777785799999661575205998212057850 Q gi|254780854|r 19 SVRFAVNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLSPKYNRRLRVKIAVAEGKS 98 (202) Q Consensus 19 ~I~~~~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS~~~n~ri~Vk~~v~e~~~ 98 (202) .|.++.+..|++++.|+++++.+++++|| .|+|++|+|+||||||++.+||||||||||+++|.|||||+.++++++ T Consensus 48 ~i~~syie~~~lvi~i~~~dn~~~l~~Lk---~lgy~~Lse~sAiD~~~~~~rFEvvY~LLS~~~n~RiRvK~~v~e~e~ 124 (263) T PRK08491 48 EILDSYVELDQAVIWIKKDDNFKVLKILK---TLGYEILSEMSAIDFLAKKGGFEVFYQLLNLSKRKRVRVKCFVKKGEA 124 (263) T ss_pred HHHHHHHCCCEEEEEECHHHHHHHHHHHH---HCCHHHHHHHHCCCCCCCCCCEEEEEECCCCCCCCEEEEEEECCCCCC T ss_conf 68887741572899975478899999998---778145333111444466895699998125666854999998689996 Q ss_pred EECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 1012233025531011210113827356798767788998987871133778984 Q gi|254780854|r 99 VPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGF 153 (202) Q Consensus 99 vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~ 153 (202) ||||++||+||||+|||+||||||.|+||||||||||||||+||||||||||||= T Consensus 125 i~Svt~i~~sAnW~ERE~yDmfGI~F~gHPdLrRILt~~~f~GhPLRKDfPL~GD 179 (263) T PRK08491 125 LDSVSFLFRSANWSEREMYDMFGIVFNNHPYLKRILMPDDWVGHPLLKSYPLKGD 179 (263) T ss_pred CCCHHHHCCCCCHHHHHHHHHCCEEECCCCCCCEECCCCCCCCCCCCCCCCCCCC T ss_conf 8725652245874888676442652479997120267889888861577788850 No 7 >PRK11742 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional Probab=100.00 E-value=0 Score=344.42 Aligned_cols=143 Identities=41% Similarity=0.734 Sum_probs=130.8 Q ss_pred HHHHHHHCCCCEEEEEEE-CCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCC-------EEEEEEEEE Q ss_conf 999998615311457984-795999986898999999987187898014751325688777785-------799999661 Q gi|254780854|r 9 GDYIVNSFSGSVRFAVNS-VGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNR-------FDVVYHFLS 80 (202) Q Consensus 9 ~~~L~~~l~~~I~~~~~~-~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~R-------FeVvY~LlS 80 (202) .+.|.++||+.+...+.. .+.+++.|+++.+.+||+|||+++ ++|.+|+|||||||+.+..| |+|||||+| T Consensus 2 ~~~L~~~Fg~~~~~~~~~~~~~~~~~v~~~~~~~v~~~L~~~~-~~f~~L~dl~~vD~~~r~~r~~~~~~~f~vvyhl~s 80 (575) T PRK11742 2 IGELRNRFGPDAFTVQATRTGVPVVWIKREQLLEVLRFLRKLP-KPYVMLFDLHGIDERLRTHREGLPAADFTVFYHLIS 80 (575) T ss_pred HHHHHHHHCHHHCCEEECCCCCEEEEECHHHHHHHHHHHHCCC-CCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEEEEE T ss_conf 3789866123423101112895699986888999999985385-103501244554153334556688787799999863 Q ss_pred CCCCCEEEEEEEECCCCE-EECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 575205998212057850-101223302553101121011382735679876778899898787113377898 Q gi|254780854|r 81 PKYNRRLRVKIAVAEGKS-VPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTG 152 (202) Q Consensus 81 ~~~n~ri~Vk~~v~e~~~-vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG 152 (202) +++|.||+||+.++++.+ +|||+++||+|||||||+||||||.|+|||||||||++++|+|||||||||..+ T Consensus 81 ~~~n~~irvk~~~~~~~~~~~s~~~~~~~a~w~Ere~~d~~Gi~f~ghp~~rr~~~~~~~~~~plrkd~~~~~ 153 (575) T PRK11742 81 IERNRDIMLKVALSENDLRVPTITKIFPNANWYERETWDMFGITFDGHPHLRRILMPPTWEGHPLRKDYPARA 153 (575) T ss_pred CCCCCEEEEEEECCCCCCCCCCHHHHCCCCCHHHHHHHHHCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCC T ss_conf 6889669999865787898981566333675788888762386637999862121677678888767775445 No 8 >PRK13292 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional Probab=100.00 E-value=0 Score=310.67 Aligned_cols=147 Identities=36% Similarity=0.623 Sum_probs=136.3 Q ss_pred HHHHHHHHHCCCCEEEEEEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCC-----EEEEEEEEEC Q ss_conf 99999998615311457984795999986898999999987187898014751325688777785-----7999996615 Q gi|254780854|r 7 DLGDYIVNSFSGSVRFAVNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNR-----FDVVYHFLSP 81 (202) Q Consensus 7 ~L~~~L~~~l~~~I~~~~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~R-----FeVvY~LlS~ 81 (202) +|+..|++.|++.+.......+.+++.|+++.+.+++++||++.+.+|++|.||||||++.+.+| |.|||||+|+ T Consensus 219 ~~~~~l~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~lk~~~~~~f~~l~~i~~vD~~~~~~~~~~~~~~~~y~l~s~ 298 (784) T PRK13292 219 GLAGELEEAFGDRVRVEEFATDMLTYRCPPELVPEVLRHLKQRSSAPFRRLEDLAAVDESCRRERSAFPDFTVNYHLLSF 298 (784) T ss_pred HHHHHHHHHHCCCEEECCCCCCCEEEECCHHHHHHHHHHHHHCCCCCCHHHCCCEEECCCCCCCCCCCCCEEEEEEEECC T ss_conf 58899998726544651465663256347777799999986555644201025211102011366667855899996124 Q ss_pred CCCCEEEEEEEECC-CCEEECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 75205998212057-8501012233025531011210113827356798767788998987871133778984 Q gi|254780854|r 82 KYNRRLRVKIAVAE-GKSVPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGF 153 (202) Q Consensus 82 ~~n~ri~Vk~~v~e-~~~vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~ 153 (202) +.|..++||+.+++ ++.+|||+++||+|||||||+||||||.|.||||+||||++.+|+|||||||||..-. T Consensus 299 ~~~~~~~~~~~~~~~~p~~psi~~~~p~a~w~ErE~~d~fGi~f~ghp~~rr~~l~~~~~~~PlrKD~~~~~~ 371 (784) T PRK13292 299 DTPGHLRIKTELRGDTPELPSITGVFPAANWYEREAFDMFGIRFAGHPNLRRILMPPDWEGHPLRKEHPFRAT 371 (784) T ss_pred CCCCEEEEEEECCCCCCCCCCHHHHCCCCCHHHHHHHHHCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCC T ss_conf 6786589983168778999835663347752888888743714369988412358998999986678877666 No 9 >CHL00012 ndhJ NADH dehydrogenase subunit J Probab=100.00 E-value=5.6e-45 Score=295.30 Aligned_cols=126 Identities=30% Similarity=0.540 Sum_probs=117.0 Q ss_pred CCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEECCCC----CEEEEEEEECC-CCEEECC Q ss_conf 959999868989999999871878980147513256887777857999996615752----05998212057-8501012 Q gi|254780854|r 28 GELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLSPKYN----RRLRVKIAVAE-GKSVPSI 102 (202) Q Consensus 28 ~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS~~~n----~ri~Vk~~v~e-~~~vpSi 102 (202) |--+|.|++++|..|+..|+.. +|++|.+.||.|+.. .+++..||||.|+..+ .|||||+.+++ ++.|||| T Consensus 25 GvE~i~v~~~~~~~va~aL~~~---GFnyL~~q~gyD~~p-g~~l~svYhl~~~~~~~d~p~rvrlKV~lpre~P~vPSv 100 (158) T CHL00012 25 GIETLQIKPEDWHSIAVILYVY---GYNYLRSQCAYDVAP-GGLLASVYHLTRIEYGVDQPEEVCIKVFVPRDNPRIPSV 100 (158) T ss_pred CEEEEEECHHHHHHHHHHHHHH---CCCCEEEEEEECCCC-CCCEEEEEEEEEECCCCCCCCEEEEEEECCCCCCCCCCC T ss_conf 5378766676869999999981---854124663231379-985799999988125656786799999657889989978 Q ss_pred CCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEE Q ss_conf 2330255310112101138273567987677889989878711337789844788 Q gi|254780854|r 103 VGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGFVELH 157 (202) Q Consensus 103 ~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~~evr 157 (202) ++|||||||+|||+||||||.|+|||||||||++++|+|||||||||++||.|++ T Consensus 101 ~~iwp~Adw~ERE~~DmfGI~F~GHPdlrRillpdd~~g~PLRKDf~~p~~~elq 155 (158) T CHL00012 101 FWVWKSADFQERESYDMLGISYDNHPRLKRILMPESWIGWPLRKDYIAPNFYEIQ 155 (158) T ss_pred HHCCCCCEEEHHHHHHHCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEE T ss_conf 0001486442554554408013699996211489999988854650699935721 No 10 >PRK12494 NADH dehydrogenase subunit J; Provisional Probab=100.00 E-value=1.8e-42 Score=279.67 Aligned_cols=124 Identities=37% Similarity=0.592 Sum_probs=115.0 Q ss_pred EEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEECCCC----CEEEEEEEECC-CCEEECCCC Q ss_conf 9999868989999999871878980147513256887777857999996615752----05998212057-850101223 Q gi|254780854|r 30 LSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLSPKYN----RRLRVKIAVAE-GKSVPSIVG 104 (202) Q Consensus 30 l~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS~~~n----~ri~Vk~~v~e-~~~vpSi~~ 104 (202) -+|.|+++.|..++..|+.. +|++|.+.||+|... .+++..||||.|+..+ .+||||+.+++ ++.||||++ T Consensus 41 E~i~V~p~~l~~va~aL~~~---GFnyL~~q~~yD~~P-g~~LvsvYHl~~~~d~~d~p~evrlKV~vprd~P~iPSi~~ 116 (172) T PRK12494 41 EIIKVEPDFLLPIATALYAY---GFNYLQCQGGYDEGP-GKNLVSFYHLIKVSDNADKPREVRLKVFLPRDDPRVPSVYW 116 (172) T ss_pred EEEEECHHHHHHHHHHHHHC---CCCHHHHEEEEECCC-CCEEEEEEEEEEECCCCCCCCEEEEEEECCCCCCCCCCHHH T ss_conf 77314789999999999982---850000110263279-97489998577842676787689999977888998997366 Q ss_pred CEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEE Q ss_conf 30255310112101138273567987677889989878711337789844788 Q gi|254780854|r 105 IYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTGFVELH 157 (202) Q Consensus 105 i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG~~evr 157 (202) |||+|||+|||+||||||.|+|||||||||++++|+||||||||++.+|.|++ T Consensus 117 iw~~AdW~ERE~yDmfGI~F~GHPdlrRilmpedw~G~PLRKDyi~pdfyelq 169 (172) T PRK12494 117 IWKGADWQERETYDMYGINFEGHPNLKRILMPEDWVGWPLRKDYIQPDFYELQ 169 (172) T ss_pred HCCCCCCHHHHHHHHCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEE T ss_conf 15588501543421047364799986035699999888866772699840410 No 11 >PRK07735 NADH dehydrogenase subunit C; Validated Probab=100.00 E-value=2.8e-41 Score=272.40 Aligned_cols=141 Identities=30% Similarity=0.516 Sum_probs=127.2 Q ss_pred HHHHHHHHHHHCCCCEEE-EE---EECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEE Q ss_conf 999999999861531145-79---84795999986898999999987187898014751325688777785799999661 Q gi|254780854|r 5 IEDLGDYIVNSFSGSVRF-AV---NSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLS 80 (202) Q Consensus 5 L~~L~~~L~~~l~~~I~~-~~---~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS 80 (202) |+.+.+.|.+.++..+.. .. ...+-.++.|.++.+.+|+.+||.|+++.|++|+.+.|+||- .+.||+|||.| T Consensus 268 L~~yv~vi~e~~g~~vl~d~YIN~LskdvPtlvv~~e~yy~v~E~lr~hE~l~fdYlSeLh~tDf~---thmEvyvHl~S 344 (420) T PRK07735 268 LNQYVEVIKEKLGEDALVDAYINKLSKDVPTLVVEPEKYYEVMELLRFHEGLAFDYMSELHATDFV---THMEVYVHLFS 344 (420) T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHH---HHEEEEEEEEE T ss_conf 999999999870147899999988606688157545879999999875031024788763030024---11056787775 Q ss_pred CCCCCEEEEEEEECC-CCEEECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 575205998212057-85010122330255310112101138273567987677889989878711337 Q gi|254780854|r 81 PKYNRRLRVKIAVAE-GKSVPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDF 148 (202) Q Consensus 81 ~~~n~ri~Vk~~v~e-~~~vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDF 148 (202) +.+.+.+.|||.++. +|.|+||+++|+||||-|||+|||+||.|.|||||+|||++++|.|||||||| T Consensus 345 y~~rq~vavKVK~dRe~p~v~Sv~plW~gAnWpErEayDLLGi~F~GHpnL~RI~mpddWvGhPLRKDY 413 (420) T PRK07735 345 YGKKQSVAVKVKLDREAPQVESVTPLWKGADWPEREAYDLLGIVFKGHPNLSRILMPDDWVGHPLRKDY 413 (420) T ss_pred CCCCCEEEEEEECCCCCCCCCCHHCCCCCCCCCHHHHHHHHCCCCCCCCCCEEEECCCCCCCCCCCCCC T ss_conf 278861689863145676543100135789983455665402112699880001166444578433557 No 12 >pfam00329 Complex1_30kDa Respiratory-chain NADH dehydrogenase, 30 Kd subunit. Probab=100.00 E-value=6.9e-38 Score=251.78 Aligned_cols=102 Identities=50% Similarity=0.992 Sum_probs=95.6 Q ss_pred HHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEECCCCCEEEEEEEEC-CCCEEECCCCCEECCCCEECCCHHH Q ss_conf 999998718789801475132568877778579999966157520599821205-7850101223302553101121011 Q gi|254780854|r 41 SLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLSPKYNRRLRVKIAVA-EGKSVPSIVGIYPGADWFEREVWDM 119 (202) Q Consensus 41 ~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS~~~n~ri~Vk~~v~-e~~~vpSi~~i~p~A~W~ERE~~Dm 119 (202) +++.+||++ +|.+|++|||+||++. ++|+++|||.|...+.+++||+.++ +++.||||++|||+|+|+|||+||| T Consensus 1 ~~~~~l~~~---g~~~L~~i~~~D~~~~-~~~~~~Y~~~~~~~~~~v~l~~~v~~~~p~vpSi~~i~p~A~w~ERE~~Dm 76 (103) T pfam00329 1 EVARFLKED---GFDRLSDLTGVDYPEE-GRFEVVYHLASIGDGERVRLKVKLPRDDPEIPSITDIFPGANWYEREVYDM 76 (103) T ss_pred CHHHHHHHC---CCCEEEEEEEEECCCC-CEEEEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCEECCCHHHHHHHEE T ss_conf 977999768---9995878886988999-989999999978899499999993887871385312275788877223161 Q ss_pred CCCEECCCCCCCCCCCCCCCCCCCCCC Q ss_conf 382735679876778899898787113 Q gi|254780854|r 120 YGIFFEGHPDLRRILTDYGFEGHPLRK 146 (202) Q Consensus 120 fGI~F~gHPdlRRiL~d~~feGhPLRK 146 (202) |||.|+||||+||||++++|+|||||| T Consensus 77 fGi~f~ghPd~rrlll~~~~~~~PLrK 103 (103) T pfam00329 77 FGIVFEGHPDLRRLLLPEDWPGHPLRK 103 (103) T ss_pred CCEEECCCCCCCCCCCCCCCCCCCCCC T ss_conf 263768999972414888998998789 No 13 >COG3262 HycE Ni,Fe-hydrogenase III component G [Energy production and conversion] Probab=99.95 E-value=1.8e-27 Score=188.35 Aligned_cols=144 Identities=34% Similarity=0.461 Sum_probs=113.3 Q ss_pred CCH-HHHHHHHHHHHHCCCCEEEE-EEECCCEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEE Q ss_conf 905-79999999998615311457-9847959999868989999999871878980147513256887777857999996 Q gi|254780854|r 1 MVR-KIEDLGDYIVNSFSGSVRFA-VNSVGELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHF 78 (202) Q Consensus 1 M~~-~L~~L~~~L~~~l~~~I~~~-~~~~~el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~L 78 (202) |++ ..+.+...|.+.|++.|... .....++++.|..+.+.+++++|+...+ .+ +.-+.|.|.-..+..| .||.| T Consensus 1 ~~e~k~e~~~~el~~~fpg~i~~e~~~~~~~~~~~V~~~~l~~~~e~l~~~~d-~~--~~~liG~~e~~~~~~~-~v~~f 76 (165) T COG3262 1 SEEVKGEEILAELNERFPGVVLDEERQTRSQLTVTVKREYLPDVVEFLYYELD-GW--LSVLIGNDEDALNGHF-AVYLF 76 (165) T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHCHHHEEEEEEHHHHHHHHHHHHHHHC-CC--HHEEECCCCCCCCCCE-EEEEE T ss_conf 93136789999999767404134303052141676448662999999987606-53--3001313444446731-69999 Q ss_pred EECCCC--CEEEEEEEECC-CCEEECCCCCEECCCCEECCCHHHCCCEECCCCCCCCCC-CCCCCCC-CCCCCCC Q ss_conf 615752--05998212057-850101223302553101121011382735679876778-8998987-8711337 Q gi|254780854|r 79 LSPKYN--RRLRVKIAVAE-GKSVPSIVGIYPGADWFEREVWDMYGIFFEGHPDLRRIL-TDYGFEG-HPLRKDF 148 (202) Q Consensus 79 lS~~~n--~ri~Vk~~v~e-~~~vpSi~~i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL-~d~~feG-hPLRKDF 148 (202) ||++.. .++.||+.++. ++.+|||++|+|+|.|+|||+-|||||.|.||||.||+. .|.+.|| ||||||+ T Consensus 77 Ls~~~a~~~~v~vk~~vp~dnpe~pSva~i~P~A~wfEREi~Dm~Gl~~vg~PD~RRLvLpddwPeg~yPLRkd~ 151 (165) T COG3262 77 LSMEQAPKCWVIVKVSVPADNPEFPSVAPIFPAALWFEREIRDMYGLDPVGAPDPRRLVLPDDWPEGIYPLRKDA 151 (165) T ss_pred EEECCCCCEEEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCCCCCCCCCHHHC T ss_conf 987168974899998628989867763102650478899999861856378998530435544766643001213 No 14 >PRK02224 chromosome segregation protein; Provisional Probab=42.88 E-value=30 Score=16.51 Aligned_cols=18 Identities=17% Similarity=0.093 Sum_probs=11.3 Q ss_pred EECCCCEECCCHHHCCCE Q ss_conf 025531011210113827 Q gi|254780854|r 106 YPGADWFEREVWDMYGIF 123 (202) Q Consensus 106 ~p~A~W~ERE~~DmfGI~ 123 (202) +.++.--.+++-+++|+. T Consensus 108 ~~~~~~v~~~i~~ilg~~ 125 (880) T PRK02224 108 IDGATDVYAEITELLRMD 125 (880) T ss_pred ECCHHHHHHHHHHHHCCC T ss_conf 025578999999996998 No 15 >PRK06452 sdhA succinate dehydrogenase flavoprotein subunit; Reviewed Probab=41.01 E-value=25 Score=16.97 Aligned_cols=18 Identities=6% Similarity=-0.055 Sum_probs=6.5 Q ss_pred CCCEEEECCCCCCCCCCC Q ss_conf 801475132568877778 Q gi|254780854|r 53 CFVNIIDLCGVDFLSRSN 70 (202) Q Consensus 53 ~F~~LiDItaVDyp~~~~ 70 (202) +-+.+....++|....++ T Consensus 150 ~i~~~~~~~~~~Ll~~~~ 167 (566) T PRK06452 150 NVDFYNEWFAWDLVRDEK 167 (566) T ss_pred CCEEEEEEEEEEEEECCC T ss_conf 978998789999885398 No 16 >TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase; InterPro: IPR004558 This family represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. HemN catalyses the anaerobic transformation of coproporhyrinogen-III into protoporphyrinogen-IX during porphyrin biosynthesis. Several species, including Escherichia coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity, IPR004559 from INTERPRO. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterised protein.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin biosynthetic process, 0005737 cytoplasm. Probab=40.76 E-value=32 Score=16.30 Aligned_cols=53 Identities=32% Similarity=0.463 Sum_probs=41.4 Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEECCCEEEEECHHHH-HHHHHHHHHCCCCCCCEEEECCCC-CC Q ss_conf 5799999999986153114579847959999868989-999999871878980147513256-88 Q gi|254780854|r 3 RKIEDLGDYIVNSFSGSVRFAVNSVGELSLDVDCGDL-VSLCSFLRDDPHCCFVNIIDLCGV-DF 65 (202) Q Consensus 3 ~~L~~L~~~L~~~l~~~I~~~~~~~~el~i~V~~~~l-~~vl~~LKdd~~~~F~~LiDItaV-Dy 65 (202) ++++.|-+.|.+.|+.-- ..-|+.|.|+|-.+ .+.+..||+. ||+-|+ -|| |+ T Consensus 121 ~Q~~~l~~~i~~~F~nf~-----~daEiSiEidPR~~~~e~~~~L~~~---GFNRlS--~GvQDf 175 (462) T TIGR00538 121 EQIEELMKEIREAFPNFS-----EDAEISIEIDPRYLTKEVIKALRDE---GFNRLS--FGVQDF 175 (462) T ss_pred HHHHHHHHHHHHHHHHHC-----CCCEEEEEECCCCCCHHHHHHHHHC---CCCEEE--CCEECC T ss_conf 999999999998732011-----5844776523741378899999975---896642--352107 No 17 >PRK05253 sulfate adenylyltransferase subunit 2; Provisional Probab=38.90 E-value=13 Score=18.77 Aligned_cols=111 Identities=22% Similarity=0.396 Sum_probs=53.1 Q ss_pred CHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCE-EEEEEEEE----C-CCCCEEEE----EEEECCCCEEECCCC Q ss_conf 68989999999871878980147513256887777857-99999661----5-75205998----212057850101223 Q gi|254780854|r 35 DCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRF-DVVYHFLS----P-KYNRRLRV----KIAVAEGKSVPSIVG 104 (202) Q Consensus 35 ~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RF-eVvY~LlS----~-~~n~ri~V----k~~v~e~~~vpSi~~ 104 (202) ..-+...+...|. ..+|+-+ ++|+-.=+...|= |-++-+-+ + -.|+|--+ ++....++ -.- T Consensus 111 ~~lKT~~L~~al~---~~~fda~--~gGaRRDEe~sRAKERiFS~R~~~~~Wdpk~QrPElW~lyn~~~~~ge----h~R 181 (300) T PRK05253 111 NIMKTEGLKQALE---KYGFDAA--FGGARRDEEKSRAKERIFSFRDEFGQWDPKNQRPELWNLYNGRINKGE----HIR 181 (300) T ss_pred HHHHHHHHHHHHH---HCCCCEE--EECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCC----EEE T ss_conf 5787899999999---6487656--510123443212125424775646888856698026676355679996----477 Q ss_pred CEECCCCEECCCHH--------HCCCEECCC-CCCCC---CCCCCCCCCCCCCC---------------CCCCCCCEEE Q ss_conf 30255310112101--------138273567-98767---78899898787113---------------3778984478 Q gi|254780854|r 105 IYPGADWFEREVWD--------MYGIFFEGH-PDLRR---ILTDYGFEGHPLRK---------------DFPVTGFVEL 156 (202) Q Consensus 105 i~p~A~W~ERE~~D--------mfGI~F~gH-PdlRR---iL~d~~feGhPLRK---------------DFPltG~~ev 156 (202) +||-.||-|..+|. .--++|.-. |-..| +++-.++ .||+. |.|+||-+|- T Consensus 182 VfPlsnWTElDIW~YI~~E~Ipi~~LYfA~~r~vv~r~g~l~~~dd~--~~~~~~e~~~~~~vRfRTLGc~p~TgaveS 258 (300) T PRK05253 182 VFPLSNWTELDIWQYIYRENIPIVPLYFAHERPVVERDGMLIMVDDD--MPLRPGEVVEERMVRFRTLGCYPCTGAVES 258 (300) T ss_pred EECCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCEEEECCCC--CCCCCCCEEEECCCEECCCCCCCCCCCCCC T ss_conf 51120225778999999848888871103788548789988743866--677999835334501224677456784157 No 18 >pfam00828 Ribosomal_L18e Ribosomal protein L18e/L15. This family includes eukaryotic L18 as well as prokaryotic L15. Probab=37.09 E-value=9.8 Score=19.43 Aligned_cols=34 Identities=32% Similarity=0.439 Sum_probs=25.6 Q ss_pred CCCC--CCCCCCCCCCCCEEEEECHHHCEEECCCCEEEEH Q ss_conf 8987--8711337789844788762115131266422022 Q gi|254780854|r 138 GFEG--HPLRKDFPVTGFVELHYDDKVKKVVYRPVELMQE 175 (202) Q Consensus 138 ~feG--hPLRKDFPltG~~evryd~~~k~v~~epv~l~q~ 175 (202) +||| .||-+.+|=-||.-. ...+..|.||+|.+= T Consensus 24 ~FeGGq~pl~rrlpKrGf~~~----~~~~~~~~~inL~~l 59 (122) T pfam00828 24 PFEGGQVPLYRRLGKRGFRRL----FKSRKNRPPVNLSKL 59 (122) T ss_pred CCCCCCCHHHHHHCCCCCCCC----CCCCEEEEEEEHHHH T ss_conf 864686613443321476665----667518999889995 No 19 >TIGR02166 dmsA_ynfE anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; InterPro: IPR011888 Many bacterial species are capable of anaerobic growth by using dimethylsulphoxide (DMSO) as the terminal electron acceptor, with DMSO reductase as the terminal elctron transfer enzyme. In Escherichia coli and many other Gram-negative bacteria DMSO reductase is a membrane-bound enzyme composed of three subunits; a catalytic molybdenum-containing subunit (DmsA), an electron transfer subunit containing a [4Fe-4S] cluster (DmsB), and a hydrophobic membrane-spanning anchor subunit which attaches the enzyme to the cytoplasmic membrane (DmsC) , . It is generally thought now that DmsAB faces the periplasm, contradicting previous results suggesting a cytoplasmic location. The N-terminal region of DmsA contains a "twin-arginine" signal sequence, suggesting export to the periplasm occurs via the TAT secretion pathway. This entry represents known and predicted bacterial DmsA polypeptides. Several species contain one or more paralogs of DmsA. In E. coli, the two paralogs of DmsA, YnfE and YnfF, are encoded within the ynfEFGHI operon . YnfE and YnfF cannot form a functional complex with DmsBC, but YnfFGH can restore growth on DMSO when DmABC is deleted. The function of YnfE is not known and it appears to prevent formation of the YnfFGH complex if present.; GO: 0009389 dimethyl sulfoxide reductase activity, 0030151 molybdenum ion binding, 0051539 4 iron 4 sulfur cluster binding. Probab=36.16 E-value=14 Score=18.54 Aligned_cols=69 Identities=28% Similarity=0.418 Sum_probs=34.5 Q ss_pred EEEEEECCCCCEEEEEEEEC--CCCEEECC---CCCEECCCCEECCCHHHCCCEECCCCC--CCCC--CCCC--CCCCC- Q ss_conf 99966157520599821205--78501012---233025531011210113827356798--7677--8899--89878- Q gi|254780854|r 75 VYHFLSPKYNRRLRVKIAVA--EGKSVPSI---VGIYPGADWFEREVWDMYGIFFEGHPD--LRRI--LTDY--GFEGH- 142 (202) Q Consensus 75 vY~LlS~~~n~ri~Vk~~v~--e~~~vpSi---~~i~p~A~W~ERE~~DmfGI~F~gHPd--lRRi--L~d~--~feGh- 142 (202) +|..-+-.. +.|..+-+++ ++.|++|= .-||..+--.=-+.|.+ .|+ =-+| |.-| .|||+ T Consensus 642 ~~~~~~~~~-~~vA~~~f~~dPeanPl~TPSGKIEIYS~~LA~~~~~W~l-------~~nvkg~~Italp~Y~pt~EG~~ 713 (849) T TIGR02166 642 IYKAKSAKG-PFVAFEDFRRDPEANPLKTPSGKIEIYSERLAQIAHTWEL-------PENVKGDEITALPEYVPTFEGYD 713 (849) T ss_pred CEECCCCCC-CEEEEHHHHCCCCCCCCCCCCCCEEHHHHHHHHHHHCCCC-------CCCCCCCCCCCCCEEECCCCCCC T ss_conf 310137898-6675212105865677786785254546999876630788-------87778873576540108888888 Q ss_pred -CC-CCCCCCC Q ss_conf -71-1337789 Q gi|254780854|r 143 -PL-RKDFPVT 151 (202) Q Consensus 143 -PL-RKDFPlt 151 (202) |+ ||||||. T Consensus 714 D~~T~~~fPLQ 724 (849) T TIGR02166 714 DPETRKDFPLQ 724 (849) T ss_pred CHHHHHCCCCC T ss_conf 86665158741 No 20 >KOG1372 consensus Probab=35.64 E-value=15 Score=18.29 Aligned_cols=20 Identities=45% Similarity=0.833 Sum_probs=16.3 Q ss_pred ECCCHHHC---CCEECCCCCCCCC Q ss_conf 11210113---8273567987677 Q gi|254780854|r 113 EREVWDMY---GIFFEGHPDLRRI 133 (202) Q Consensus 113 ERE~~Dmf---GI~F~gHPdlRRi 133 (202) =||+|.|| ||.| ||.-.||= T Consensus 198 yREAYnmfAcNGILF-NHESPRRG 220 (376) T KOG1372 198 YREAYNMFACNGILF-NHESPRRG 220 (376) T ss_pred HHHHHCCEEECCEEE-CCCCCCCC T ss_conf 488412013131765-47787666 No 21 >pfam01305 consensus Probab=32.90 E-value=14 Score=18.55 Aligned_cols=33 Identities=39% Similarity=0.737 Sum_probs=27.1 Q ss_pred CCCCC--CCCCCCCCCCCCEEEEECHHHCEEECCCCEEEEH Q ss_conf 98987--8711337789844788762115131266422022 Q gi|254780854|r 137 YGFEG--HPLRKDFPVTGFVELHYDDKVKKVVYRPVELMQE 175 (202) Q Consensus 137 ~~feG--hPLRKDFPltG~~evryd~~~k~v~~epv~l~q~ 175 (202) -+||| -||-+-+|--||. ...+..|++|+|.+= T Consensus 48 ~gFEGGQ~Pl~rRlPKrGF~------n~~~~~~~~vnl~~L 82 (102) T pfam01305 48 RGFEGGQTPLYRRLPKRGFT------NIKRKRYAEVNLKDL 82 (102) T ss_pred CCCCCCCCEEEEECCCCCCC------CCCCCEEEEEEHHHH T ss_conf 74337874016725636767------888875588859998 No 22 >pfam10364 NKWYS Putative capsular polysaccharide synthesis protein. Found only in Vibrio species, pombe and one other fungi, this is a the N-terminal 150 residues of a family of proteins of unknown function. There is a characteristic NKWYS sequence motif. Probab=31.94 E-value=12 Score=18.98 Aligned_cols=25 Identities=20% Similarity=0.404 Sum_probs=19.3 Q ss_pred EECCCCEECCCHHHCCCEECCCCCC Q ss_conf 0255310112101138273567987 Q gi|254780854|r 106 YPGADWFEREVWDMYGIFFEGHPDL 130 (202) Q Consensus 106 ~p~A~W~ERE~~DmfGI~F~gHPdl 130 (202) =-.++|+-||+-+.|||.--+||=- T Consensus 31 ~y~l~WFD~Eik~~fGIDV~~~~F~ 55 (141) T pfam10364 31 NYALEWFDNEIKELFGIDVFNQDFD 55 (141) T ss_pred HHHHHHHHHHHHHHCCCEECCCCCC T ss_conf 1267888999998719212057689 No 23 >PRK12563 sulfate adenylyltransferase subunit 2; Provisional Probab=31.86 E-value=16 Score=18.12 Aligned_cols=113 Identities=26% Similarity=0.437 Sum_probs=53.0 Q ss_pred HHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCC-EEEEEEEEECC-----CCCEEEE----EEEECCCCEEECCCCCEE Q ss_conf 8999999987187898014751325688777785-79999966157-----5205998----212057850101223302 Q gi|254780854|r 38 DLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNR-FDVVYHFLSPK-----YNRRLRV----KIAVAEGKSVPSIVGIYP 107 (202) Q Consensus 38 ~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~R-FeVvY~LlS~~-----~n~ri~V----k~~v~e~~~vpSi~~i~p 107 (202) +...+.+.|. ..+|+-+ +.|+-.=+..-| =|-++-+-+-. .|+|--+ .+....++ -.-+|| T Consensus 125 KT~~L~~ale---~~~fDa~--~gGaRRDEEksRAKERiFS~Rd~~~~WDPknQrPElWnlyN~~~~~Ge----h~RVfP 195 (312) T PRK12563 125 KTQGLKQALD---HHGFDAA--IGGARRDEEKSRAKERIFSFRSAFHRWDPKAQRPELWSLYNARLRRGE----SLRVFP 195 (312) T ss_pred HHHHHHHHHH---HCCCCEE--EECCCCCCCCCCCCCEEECCCCCCCCCCCCCCCHHHHHHHCCCCCCCC----EEEECC T ss_conf 8899999999---7398878--504532134234434030666778898855588358776155679997----144223 Q ss_pred CCCCEECCCHHH--------CCCEECCC-CCCCC--CCCCCCCCCCCCCC---------------CCCCCCCEEEEEC Q ss_conf 553101121011--------38273567-98767--78899898787113---------------3778984478876 Q gi|254780854|r 108 GADWFEREVWDM--------YGIFFEGH-PDLRR--ILTDYGFEGHPLRK---------------DFPVTGFVELHYD 159 (202) Q Consensus 108 ~A~W~ERE~~Dm--------fGI~F~gH-PdlRR--iL~d~~feGhPLRK---------------DFPltG~~evryd 159 (202) -.||-|..+|.- --++|..- |=.+| .|...+=+-.||++ |.|+||-+|-.=+ T Consensus 196 lsNWTElDIW~YI~~E~Ipi~~LYFa~~R~vv~RdG~li~vdd~~~~l~~gE~~~~~~vRfRTLGc~p~TgaveS~A~ 273 (312) T PRK12563 196 LSNWTELDVWQYIAREKIPLVPLYFAKRRPVVERDGLLIMVDDERTPLRPGETPQQRKVRFRTLGCYPLTGAVESDAD 273 (312) T ss_pred CCCCCHHHHHHHHHHHCCCCCCCEECCCCCEEEECCEEEECCCCCCCCCCCCCCEECCEEEECCCCCCCCCCCCCCCC T ss_conf 556617899999998288988612115664275589488357766678888843014421211566366782057888 No 24 >COG1334 FlaG Uncharacterized flagellar protein FlaG [Cell motility and secretion] Probab=30.71 E-value=47 Score=15.32 Aligned_cols=39 Identities=18% Similarity=0.221 Sum_probs=23.3 Q ss_pred CCCCEEEEEE-ECCCEEEEECHHHHHHHHHHHHHCCCCCC Q ss_conf 1531145798-47959999868989999999871878980 Q gi|254780854|r 16 FSGSVRFAVN-SVGELSLDVDCGDLVSLCSFLRDDPHCCF 54 (202) Q Consensus 16 l~~~I~~~~~-~~~el~i~V~~~~l~~vl~~LKdd~~~~F 54 (202) ++..+..+.. ..|++.=.|+++.+.++++.|++.-+.-| T Consensus 77 lg~~vVkI~d~~TgeVIRqIPpee~L~l~~r~~d~~gil~ 116 (120) T COG1334 77 LGELVVKIIDKDTGEVIRQIPPEEALELAARMRDVIGILF 116 (120) T ss_pred CCCEEEEEEECCCCCCHHHCCHHHHHHHHHHHHHHHHHEE T ss_conf 5947999997888711021882999999999998661200 No 25 >TIGR01472 gmd GDP-mannose 4,6-dehydratase; InterPro: IPR006368 This family represent GDP-mannose 4,6-dehydratase, also known as GDP-D-mannose dehydratase. This enzyme converts GDP-mannose to GDP-4-dehydro-6-deoxy-D-mannose, the first of three steps for the conversion of GDP-mannose to GDP-fucose in animals, plants, and bacteria. In bacteria, GDP-L-fucose acts as a precursor of surface antigens such as the extracellular polysaccharide colanic acid of Escherichia coli. Excluded from this family are members of the clade that are poorly related because of highly dervied (phylogenetically long-branch) sequences, e.g. Aneurinibacillus thermoaerophilus Gmd, described as a bifunctional GDP-mannose 4,6-dehydratase/GDP-6-deoxy-D-lyxo-4-hexulose reductase .; GO: 0008446 GDP-mannose 46-dehydratase activity, 0019673 GDP-mannose metabolic process, 0005622 intracellular. Probab=28.74 E-value=26 Score=16.90 Aligned_cols=107 Identities=20% Similarity=0.245 Sum_probs=59.1 Q ss_pred HHHHHHHHHCCCCEEE------EEEECC--CEEEEECHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEE Q ss_conf 9999999861531145------798479--59999868989999999871878980147513256887777857999996 Q gi|254780854|r 7 DLGDYIVNSFSGSVRF------AVNSVG--ELSLDVDCGDLVSLCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHF 78 (202) Q Consensus 7 ~L~~~L~~~l~~~I~~------~~~~~~--el~i~V~~~~l~~vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~L 78 (202) .|.+.|...-|..|-+ +.+.++ +-|..+..-.-+.+|..+|++.-|+- .++ -=.|+= T Consensus 71 ~L~~~i~~~kP~EiYNLAAQSHV~VSFe~PeYTa~~~g~GTLrlLEA~r~hni~gl--------------~~~-~rFYQA 135 (365) T TIGR01472 71 NLVKLIDEIKPTEIYNLAAQSHVKVSFEIPEYTADVDGIGTLRLLEAVRSHNILGL--------------IKE-IRFYQA 135 (365) T ss_pred HHHHHHHHCCCCEEECCCCCCCEEEECCCCCCHHCHHHHHHHHHHHHHHHHHHHCC--------------CCC-EEEEEC T ss_conf 99999740488634202023710354165200001244317789998742334141--------------203-025524 Q ss_pred EECCCCCEEEEEEEECCCCEE-E-------CCCCCEECCCCEECCCHHHC---CCEECCCCCCCC Q ss_conf 615752059982120578501-0-------12233025531011210113---827356798767 Q gi|254780854|r 79 LSPKYNRRLRVKIAVAEGKSV-P-------SIVGIYPGADWFEREVWDMY---GIFFEGHPDLRR 132 (202) Q Consensus 79 lS~~~n~ri~Vk~~v~e~~~v-p-------Si~~i~p~A~W~ERE~~Dmf---GI~F~gHPdlRR 132 (202) .|-+. ---.-.++=.|.+|. | =+.--|-..|+ ||+|-|| ||.| ||--.|| T Consensus 136 StSEl-YG~v~~~PQ~E~TPF~PRSPYAaAK~yA~w~tvNY--REAYgL~A~nGILF-NHESP~R 196 (365) T TIGR01472 136 STSEL-YGEVQEIPQNETTPFYPRSPYAAAKLYAYWITVNY--REAYGLFAVNGILF-NHESPRR 196 (365) T ss_pred CCHHH-CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHEEEE--ECCCCCCHHCCEEE-CCCCCCC T ss_conf 52311-36555788888887688876899988454310212--10034100035210-4678877 No 26 >PRK05592 rplO 50S ribosomal protein L15; Reviewed Probab=28.30 E-value=18 Score=17.82 Aligned_cols=38 Identities=32% Similarity=0.618 Sum_probs=28.0 Q ss_pred CCCCCC--CCCCCCCCCCCCEEEEECHHHCEEECCCCEEEEHHHCCC Q ss_conf 998987--871133778984478876211513126642202221276 Q gi|254780854|r 136 DYGFEG--HPLRKDFPVTGFVELHYDDKVKKVVYRPVELMQEHRDYD 180 (202) Q Consensus 136 d~~feG--hPLRKDFPltG~~evryd~~~k~v~~epv~l~q~~r~f~ 180 (202) ..|||| -||-+=.|--||. ...++.|++|+|.+= ..|+ T Consensus 47 ~~gFEGGQ~PL~rRlPKrGF~------n~~~~~~~~inL~~L-~~~~ 86 (144) T PRK05592 47 RPGFEGGQMPLYRRLPKRGFT------NIFRKEYAVVNLSDL-AKFE 86 (144) T ss_pred CCCCCCCCCCCEEECCCCCCC------CCCCCEEEEECHHHH-HCCC T ss_conf 987437986427844643666------656534689839998-4366 No 27 >pfam09860 DUF2087 Uncharacterized protein conserved in bacteria (DUF2087). This domain, found in various hypothetical prokaryotic proteins and transcriptional activators, has no known function. Probab=26.29 E-value=3.3 Score=22.30 Aligned_cols=35 Identities=43% Similarity=0.665 Sum_probs=30.9 Q ss_pred CEECCCCEECCCHHHCCCEECCCCCCCCCCCCCCC Q ss_conf 30255310112101138273567987677889989 Q gi|254780854|r 105 IYPGADWFEREVWDMYGIFFEGHPDLRRILTDYGF 139 (202) Q Consensus 105 i~p~A~W~ERE~~DmfGI~F~gHPdlRRiL~d~~f 139 (202) +=|+...-|+|+-+...=.|.+|.-|||-|-|+|| T Consensus 24 f~~g~~ysE~EvN~iL~~~~~D~a~LRR~LVd~g~ 58 (71) T pfam09860 24 FEPGREYSEKEVNAILKRFHEDYALLRRELVDYGF 58 (71) T ss_pred CCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCC T ss_conf 89999649999999999984889999999997786 No 28 >TIGR02374 nitri_red_nirB nitrite reductase [NAD(P)H], large subunit; InterPro: IPR012744 This entry describes NirB, the large subunit of nitrite reductase [NAD(P)H] (the assimilatory nitrite reductase), which associates with NirD, the small subunit (IPR012748 from INTERPRO). In a few bacteria such as Klebsiella pneumoniae and in fungi, the two regions are fused.; GO: 0008942 nitrite reductase [NAD(P)H] activity, 0050660 FAD binding, 0050661 NADP binding, 0042128 nitrate assimilation. Probab=23.55 E-value=11 Score=19.14 Aligned_cols=31 Identities=29% Similarity=0.519 Sum_probs=22.0 Q ss_pred HHHCCCEECCCCCCCCCCCCCCCC-CCCCCCC Q ss_conf 011382735679876778899898-7871133 Q gi|254780854|r 117 WDMYGIFFEGHPDLRRILTDYGFE-GHPLRKD 147 (202) Q Consensus 117 ~DmfGI~F~gHPdlRRiL~d~~fe-GhPLRKD 147 (202) -|||||.-+.-|.+.|=|-+-+|+ ||--||- T Consensus 615 l~L~G~k~~dLP~~w~~L~~~~~e~G~aY~kA 646 (813) T TIGR02374 615 LDLFGAKKDDLPKIWKDLVMPGYESGHAYGKA 646 (813) T ss_pred EEEECCCHHHHHHHHHHHCCCCCCCHHHHHHH T ss_conf 00024876431588997405565550778877 No 29 >pfam09234 DUF1963 Domain of unknown function (DUF1963). This domain is found in a set of hypothetical bacterial proteins. Its exact function has not, as yet, been described. Probab=23.24 E-value=64 Score=14.49 Aligned_cols=15 Identities=20% Similarity=0.168 Sum_probs=10.1 Q ss_pred CCCCCCCEEEEEEEE Q ss_conf 877778579999966 Q gi|254780854|r 65 FLSRSNRFDVVYHFL 79 (202) Q Consensus 65 yp~~~~RFeVvY~Ll 79 (202) -|+....|.|+|+=- T Consensus 62 ~~~~~~~~rV~y~~~ 76 (221) T pfam09234 62 SPEDQTGFRVIYFED 76 (221) T ss_pred CCCCCCCCEEEEECC T ss_conf 834488748999867 No 30 >PRK04290 30S ribosomal protein S6e; Validated Probab=21.06 E-value=62 Score=14.55 Aligned_cols=20 Identities=25% Similarity=0.381 Sum_probs=14.5 Q ss_pred CCCCCCCCCCCCCCCCCEEE Q ss_conf 98987871133778984478 Q gi|254780854|r 137 YGFEGHPLRKDFPVTGFVEL 156 (202) Q Consensus 137 ~~feGhPLRKDFPltG~~ev 156 (202) -+-.|+|||+|-+-++-+.+ T Consensus 56 sDk~GfPMr~~v~g~~r~~l 75 (115) T PRK04290 56 SDKDGFPMRPDVPGPVRKRI 75 (115) T ss_pred CCCCCCCCCCCCCCCCEEEE T ss_conf 58889712688658756999 No 31 >pfam02485 Branch Core-2/I-Branching enzyme. This is a family of two different beta-1,6-N-acetylglucosaminyltransferase enzymes, I-branching enzyme and core-2 branching enzyme . I-branching enzyme is responsible for the production of the blood group I-antigen during embryonic development. Core-2 branching enzyme forms crucial side-chain branches in O-glycans. Probab=20.56 E-value=72 Score=14.15 Aligned_cols=28 Identities=21% Similarity=0.197 Sum_probs=17.9 Q ss_pred HHHHHHHHHCCCCCCCEEEECCCCCCCCCC Q ss_conf 999999871878980147513256887777 Q gi|254780854|r 40 VSLCSFLRDDPHCCFVNIIDLCGVDFLSRS 69 (202) Q Consensus 40 ~~vl~~LKdd~~~~F~~LiDItaVDyp~~~ 69 (202) .-+...|+.+. ..++.+-|+|-|+|=+. T Consensus 77 ~~l~~al~~~~--~w~~fi~Ls~~d~Pl~t 104 (242) T pfam02485 77 RLLANALLLDP--SWDYFVLLSESDIPLKT 104 (242) T ss_pred HHHHHHHHCCC--CCCEEEECCCCCCCCCC T ss_conf 99999983698--77889980577412478 No 32 >pfam06283 ThuA Trehalose utilisation. This family consists of several bacterial ThuA like proteins. ThuA appears to be involved in utilisation of trehalose. The thuA and thuB genes form part of the trehalose/sucrose transport operon thuEFGKAB, which is located on the pSymB megaplasmid. The thuA and thuB genes are induced in vitro by trehalose but not by sucrose and the extent of its induction depends on the concentration of trehalose available in the medium. Probab=20.20 E-value=34 Score=16.14 Aligned_cols=106 Identities=16% Similarity=0.131 Sum_probs=55.2 Q ss_pred HHHHHHHCCCCCCCEEEECCCCCCCCCCCCEEEEEEEEE----CCCCCEEEEEEEECCCCE---EECCCCCEECCCCEEC Q ss_conf 999987187898014751325688777785799999661----575205998212057850---1012233025531011 Q gi|254780854|r 42 LCSFLRDDPHCCFVNIIDLCGVDFLSRSNRFDVVYHFLS----PKYNRRLRVKIAVAEGKS---VPSIVGIYPGADWFER 114 (202) Q Consensus 42 vl~~LKdd~~~~F~~LiDItaVDyp~~~~RFeVvY~LlS----~~~n~ri~Vk~~v~e~~~---vpSi~~i~p~A~W~ER 114 (202) +...|+++..+..+...|..... +++-++|+||-.+.. +...++-.+.-.+...-- +-+.++-++.-.||. T Consensus 22 ~~~~l~~~~~f~v~~t~d~~~~~-~~~L~~yDvvv~~~t~g~~~~~~q~~a~~~~v~~GgG~vg~H~a~~~~~~w~~y~- 99 (216) T pfam06283 22 IAALLEESGGFEVDTTEDPEHLT-DENLAQYDVLVFNGTTGDELSDEQEAALEKYVAEGGGLVGLHSATDAFRNWPEYN- 99 (216) T ss_pred HHHHHHHCCCEEEEEECCHHHCC-HHHHHHCCEEEEECCCCCCCCHHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHH- T ss_conf 99988555985999974858819-7768538999997899987999999999999985998798565434677888999- Q ss_pred CCHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 21011382735679876778899898787113377898 Q gi|254780854|r 115 EVWDMYGIFFEGHPDLRRILTDYGFEGHPLRKDFPVTG 152 (202) Q Consensus 115 E~~DmfGI~F~gHPdlRRiL~d~~feGhPLRKDFPltG 152 (202) +|.|-.|.+||.--.+-..---..||.-+.+|-+. T Consensus 100 ---~liGg~f~~Hp~~~~~~v~v~d~~HPi~~gl~~~~ 134 (216) T pfam06283 100 ---RLMGGSFKWHPAGEPFTVWVVDPDHPITKGLPESF 134 (216) T ss_pred ---HHHCCEECCCCCCCEEEEEECCCCCHHHHCCCCCC T ss_conf ---98586032579994699997289995560776567 No 33 >COG2125 RPS6A Ribosomal protein S6E (S10) [Translation, ribosomal structure and biogenesis] Probab=20.18 E-value=66 Score=14.39 Aligned_cols=19 Identities=32% Similarity=0.564 Sum_probs=13.2 Q ss_pred CCCCCCCCCCCCCCCCEEE Q ss_conf 8987871133778984478 Q gi|254780854|r 138 GFEGHPLRKDFPVTGFVEL 156 (202) Q Consensus 138 ~feGhPLRKDFPltG~~ev 156 (202) +-+|+|||.|-|..+-+.+ T Consensus 58 D~~GfPMr~dv~g~~r~ri 76 (120) T COG2125 58 DKDGFPMRPDVPGPRRVRI 76 (120) T ss_pred CCCCCCCCCCCCCCCEEEE T ss_conf 8888712689878614899 No 34 >KOG0105 consensus Probab=20.03 E-value=43 Score=15.54 Aligned_cols=30 Identities=27% Similarity=0.596 Sum_probs=15.9 Q ss_pred CCCCEECCCCEE-----CCCHH---------HCCC-EECCCCCCC Q ss_conf 223302553101-----12101---------1382-735679876 Q gi|254780854|r 102 IVGIYPGADWFE-----REVWD---------MYGI-FFEGHPDLR 131 (202) Q Consensus 102 i~~i~p~A~W~E-----RE~~D---------mfGI-~F~gHPdlR 131 (202) |+.+=|++.|.. ||+=| -.|| .|..|.||. T Consensus 120 VsGLp~SgSWQDLKDHmReaGdvCfadv~rDg~GvV~~~r~eDMk 164 (241) T KOG0105 120 VSGLPPSGSWQDLKDHMREAGDVCFADVQRDGVGVVEYLRKEDMK 164 (241) T ss_pred EECCCCCCCHHHHHHHHHHHCCEEEEEEECCCCEEEEEEEHHHHH T ss_conf 734899875678899888617712334220662056552056589 Done!